2VWU Transferase date Jun 27, 2008
title Ephb4 Kinase Domain Inhibitor Complex
authors J.Read, C.A.Brassington, I.Green, E.J.Mccall, A.L.Valentine, D.Ba S.Rowsell, M.Packer, M.Mcalister
compound source
Molecule: Ephrin Type-B Receptor 4
Chain: A
Fragment: Kinase Domain, Residues 598-887
Synonym: Ephb4 Receptor Tyrosine Kinase, Tyrosine-Protein K Receptor Htk, Tyrosine-Protein Kinase Tyro11;
Ec: 2.7.10.1
Engineered: Yes
Mutation: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Spodoptera Frugiperda
Expression_system_taxid: 7108
Expression_system_cell_line: Sf21
Expression_system_vector_type: Baculovirus
Expression_system_plasmid: Pfastbac
symmetry Space Group: P 1 21 1
R_factor 0.175 R_Free 0.209
crystal
cell
length a length b length c angle alpha angle beta angle gamma
46.490 53.479 61.392 90.00 111.15 90.00
method X-Ray Diffractionresolution 2.00 Å
ligand 7X1 BindingDB enzyme Transferase E.C.2.7.10.1 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A


Primary referenceInhibitors of the tyrosine kinase EphB4. Part 1: Structure-based design and optimization of a series of 2,4-bis-anilinopyrimidines., Bardelle C, Cross D, Davenport S, Kettle JG, Ko EJ, Leach AG, Mortlock A, Read J, Roberts NJ, Robins P, Williams EJ, Bioorg Med Chem Lett. 2008 May 1;18(9):2776-80. Epub 2008 Apr 10. PMID:18434142
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (48 Kb) [Save to disk]
  • Biological Unit Coordinates (2vwu.pdb1.gz) 42 Kb
  • LPC: Ligand-Protein Contacts for 2VWU
  • CSU: Contacts of Structural Units for 2VWU
  • Likely Quarternary Molecular Structure file(s) for 2VWU
  • Structure Factors (249 Kb)
  • Retrieve 2VWU in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2VWU from S2C, [Save to disk]
  • Re-refined 2vwu structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 2VWU in 3D
  • Proteopedia, because life has more than 2D.
  • On Jmol, a nice Rasmol like molecule viewer. This is good for easiest viewing of basic structure.
  • On FirstGlance, an excellent tool for a guided tour on the structure components, by E. Martz.
  • Visual 3D analysis of 2VWU
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Electron Density related parameters from EDS Electron Density Server, at Upsala
  • Dipole moment, from Dipole Server at Weizmann Institute
  • 3D motif for 2VWU, from MSDmotif at EBI
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2vwu_A] [2vwu]
  • SWISS-PROT database: [P54760]
  • Domain organization of [EPHB4_HUMAN] by SWISSPFAM
  • Domain found in 2VWU: [TyrKc ] by SMART
  • Other resources with information on 2VWU
  • Community annotation for 2VWU at PDBWiki (http://pdbwiki.org)
  • MMDB (Entrez's Structure Database)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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